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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ), 'gf_id' => 'HOM05D001069', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001069' ), 'data_identifier' => 'HOM05D001069', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001069', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p32020' => 'bna', 'A03p17120' => 'bna', 'A03p43140' => 'bna', 'A04p23330' => 'bna', 'A05p14900' => 'bna', 'A06p05680' => 'bna', 'A08p34980' => 'bna', 'A10p05340' => 'bna', 'A10p05350' => 'bna', 'Aa31LG5G6190' => 'aar', 'Aa31LG8G9540' => 'aar', 'Aa31sc20G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4798' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.325' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.398' => 'aag', 'Actinidia04486' => 'ach', 'Actinidia19948' => 'ach', 'Actinidia21162' => 'ach', 'Actinidia24945' => 'ach', 'Actinidia30204' => 'ach', 'Actinidia30205' => 'ach', 'Actinidia32807' => 'ach', 'Actinidia32808' => 'ach', 'Ah.06g192500' => 'amhyb', 'AL1G16780' => 'aly', 'AL1G19210' => 'aly', 'AL1G49890' => 'aly', 'AL3G37500' => 'aly', 'AL4G25470' => 'aly', 'AL7G45970' => 'aly', 'Aqoxy2G00949' => 'aox', 'Aqoxy2G03552' => 'aox', 'Aqoxy5G00338' => 'aox', 'Aqoxy7G04121' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8YHQ6Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AYUH3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IVX6HA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAH3YR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K52Z4I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6Y5EX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L04BDM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2T33F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SY74BB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UE6XF8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7CRUC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VDJK8S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VQ2WN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W2FENU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X5I3PL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XI1KBX' => 'arhy', 'AT1G06770' => 'ath', 'AT1G08780' => 'ath', 'AT1G35183' => 'ath', 'AT2G30580' => 'ath', 'AT3G23060' => 'ath', 'ATR0665G033' => 'atr', 'ATR0665G433' => 'atr', 'Atru.chr2.834' => 'acertr', 'Atru.chr2.835' => 'acertr', 'Atru.chr5.1590' => 'acertr', 'Atru.chr7.1675' => 'acertr', 'AUR62000994' => 'cqu', 'AUR62000996' => 'cqu', 'AUR62004964' => 'cqu', 'AUR62004967' => 'cqu', 'BcaB01g04087' => 'bca', 'BcaB01g04094' => 'bca', 'BcaB02g10334' => 'bca', 'BcaB03g14634' => 'bca', 'BcaB04g20475' => 'bca', 'BcaB06g28384' => 'bca', 'BcaB07g34137' => 'bca', 'BcaC01g03393' => 'bca', 'BcaC01g03394' => 'bca', 'BcaC01g06009' => 'bca', 'BcaC02g07995' => 'bca', 'BcaC02g11155' => 'bca', 'BcaC07g38446' => 'bca', 'BcaC09g49243' => 'bca', 'BcaNung06267' => 'bca', 'BolC1t04052H' => 'bol', 'BolC3t17563H' => 'bol', 'BolC4t23529H' => 'bol', 'BolC4t27471H' => 'bol', 'BolC5t29444H' => 'bol', 'BolC8t48854H' => 'bol', 'BraA01t03327Z' => 'bra', 'BraA03t13456Z' => 'bra', 'BraA04t17861Z' => 'bra', 'BraA05t20416Z' => 'bra', 'BraA06t23778Z' => 'bra', 'BraA08t35409Z' => 'bra', 'BraA10t42798Z' => 'bra', 'BraA10t42800Z' => 'bra', 'C01p41020' => 'bna', 'C03p20220' => 'bna', 'C03p52990' => 'bna', 'C04p19900' => 'bna', 'C04p59630' => 'bna', 'C05p06850' => 'bna', 'C08p12160' => 'bna', 'CAN.G134.94' => 'can', 'CAN.G2355.1' => 'can', 'CAN.G280.12' => 'can', 'CAN.G626.19' => 'can', 'CANSAT35G1018' => 'cansat', 'CANSAT54G2612' => 'cansat', 'CANSAT54G2615' => 'cansat', 'CANSAT78G2068' => 'cansat', 'CARHR006460' => 'chi', 'CARHR008700' => 'chi', 'CARHR124050' => 'chi', 'CARHR216270' => 'chi', 'Carub.0001s0609' => 'cru', 'Carub.0001s0812' => 'cru', 'Carub.0003s2323' => 'cru', 'Carub.0004s1174' => 'cru', 'Carub.0007s3206' => 'cru', 'Ca_08650_v3' => 'car', 'Ca_09425_v3' => 'car', 'Ca_09710_v3' => 'car', 'Ca_09872_v3' => 'car', 'Ca_10042_v3' => 'car', 'CBR_g8595' => 'cbr', 'Cc01_g18760' => 'ccan', 'Cc02_g30720' => 'ccan', 'CDE03G0333' => 'cde', 'CDE04G1763' => 'cde', 'CDE06G2225' => 'cde', 'CDE06G2591' => 'cde', 'CDE07G0350' => 'cde', 'CDE07G0518' => 'cde', 'Cfa002337' => 'cfa', 'Cfa006409' => 'cfa', 'Cfa008391' => 'cfa', 'Ciclev10005027m.g' => 'ccl', 'Ciclev10020170m.g' => 'ccl', 'Ciclev10028433m.g' => 'ccl', 'Ciclev10029576m.g' => 'ccl', 'CiPaw.01G192000' => 'cil', 'CiPaw.02G116900' => 'cil', 'CiPaw.03G258400' => 'cil', 'CiPaw.04G182600' => 'cil', 'CiPaw.07G068300' => 'cil', 'CiPaw.07G068400' => 'cil', 'CiPaw.08G122900' => 'cil', 'CiPaw.08G123000' => 'cil', 'ClCG02G016720' => 'cla', 'ClCG02G016730' => 'cla', 'ClCG05G004650' => 'cla', 'ClCG07G000630' => 'cla', 'COL.COLO4_05097' => 'col', 'COL.COLO4_15368' => 'col', 'COL.COLO4_15777' => 'col', 'COL.COLO4_18120' => 'col', 'Cpa.g.sc58.40' => 'cpa', 'Cpa.g.sc58.41' => 'cpa', 'Cpa.g.sc617.1' => 'cpa', 'Cre16.g671750' => 'cre', 'CsaV3_2G004010' => 'csa', 'CsaV3_2G004020' => 'csa', 'CsaV3_2G013690' => 'csa', 'CsaV3_3G012640' => 'csa', 'CSS0001213' => 'camsi', 'CSS0005585' => 'camsi', 'CSS0007284' => 'camsi', 'CSS0013670' => 'camsi', 'CSS0018717' => 'camsi', 'CSS0019086' => 'camsi', 'CSS0036193' => 'camsi', 'CSS0046589' => 'camsi', 'CSS0046715' => 'camsi', 'DCAR_005730' => 'dca', 'DCAR_006651' => 'dca', 'DCAR_007344' => 'dca', 'DCAR_012519' => 'dca', 'DCAR_018455' => 'dca', 'DCAR_024208' => 'dca', 'DCAR_027271' => 'dca', 'Dinv08151' => 'din', 'Dinv14083' => 'din', 'Dinv14084' => 'din', 'Dinv18692' => 'din', 'Dinv20292' => 'din', 'Dinv20293' => 'din', 'Dinv22471' => 'din', 'Dinv25572' => 'din', 'Dinv29927' => 'din', 'Dinv44621' => 'din', 'Duzib128G0644' => 'dzi', 'Duzib133G0593' => 'dzi', 'Duzib138G1563' => 'dzi', 'Duzib151G0746' => 'dzi', 'Duzib177G1087' => 'dzi', 'Duzib177G1121' => 'dzi', 'Duzib187G1995' => 'dzi', 'Duzib211G0695' => 'dzi', 'ECA236G5013' => 'eca', 'ECA248G2621' => 'eca', 'EL10Ac4g09162' => 'bvu', 'EL10Ac4g09163' => 'bvu', 'Eucgr.B01495' => 'egr', 'Eucgr.B02121' => 'egr', 'Eucgr.H04324' => 'egr', 'FAN02G0137' => 'fan', 'FAN02G3324' => 'fan', 'FAN05G0336' => 'fan', 'FAN05G3732' => 'fan', 'FAN09G0270' => 'fan', 'FAN09G2351' => 'fan', 'FAN14G0993' => 'fan', 'FAN14G1169' => 'fan', 'FAN14G1639' => 'fan', 'FAN14G2498' => 'fan', 'FAN14G3923' => 'fan', 'FAN14G4032' => 'fan', 'FAN14G4385' => 'fan', 'FAN14G4752' => 'fan', 'FAN14G5212' => 'fan', 'FAN15G3286' => 'fan', 'FAN20G1158' => 'fan', 'FAN22G1877' => 'fan', 'FAN24G0273' => 'fan', 'FAN27G3170' => 'fan', 'FvH4_2g22360' => 'fve', 'FvH4_2g22400' => 'fve', 'FvH4_4g02340' => 'fve', 'FvH4_6g02700' => 'fve', 'FvH4_6g02710' => 'fve', 'FvH4_6g02714' => 'fve', 'FvH4_6g02790' => 'fve', 'Glyma.02G141500' => 'gma', 'Glyma.03G159500' => 'gma', 'Glyma.10G032500' => 'gma', 'Glyma.10G162800' => 'gma', 'Glyma.10G162900' => 'gma', 'Glyma.10G180300' => 'gma', 'Glyma.19G161700' => 'gma', 'Glyma.20G210200' => 'gma', 'Glyma.20G225400' => 'gma', 'Glyma.20G225500' => 'gma', 'Gohir.A07G014500' => 'ghi', 'Gohir.A07G209700' => 'ghi', 'Gohir.A08G061500' => 'ghi', 'Gohir.A10G156466' => 'ghi', 'Gohir.A11G127820' => 'ghi', 'Gohir.A11G249000' => 'ghi', 'Gohir.A13G104300' => 'ghi', 'Gohir.D07G014200' => 'ghi', 'Gohir.D07G215800' => 'ghi', 'Gohir.D08G070600' => 'ghi', 'Gohir.D10G110300' => 'ghi', 'Gohir.D11G133300' => 'ghi', 'Gohir.D11G259800' => 'ghi', 'Gohir.D13G107700' => 'ghi', 'Gorai.001G015000' => 'gra', 'Gorai.004G074300' => 'gra', 'Gorai.007G142500' => 'gra', 'Gorai.007G278000' => 'gra', 'Gorai.011G121600' => 'gra', 'Gorai.013G104800' => 'gra', 'Gorai.013G120600' => 'gra', 'GSVIVG01000748001' => 'vvi', 'GSVIVG01018105001' => 'vvi', 'GSVIVG01036275001' => 'vvi', 'GSVIVG01036276001' => 'vvi', 'HanXRQChr01g0005331' => 'han', 'HanXRQChr04g0113611' => 'han', 'HanXRQChr07g0189041' => 'han', 'HanXRQChr09g0251911' => 'han', 'HanXRQChr16g0514711' => 'han', 'HanXRQChr17g0559331' => 'han', 'Haze_04369' => 'cav', 'Haze_04370' => 'cav', 'Haze_11278' => 'cav', 'Haze_24541' => 'cav', 'Hma1.2p1_0817F.1_g223140' => 'hma', 'Hma1.2p1_1029F.1_g249660' => 'hma', 'HPP92_007019' => 'vpl', 'HPP92_010178' => 'vpl', 'HPP92_010246' => 'vpl', 'HPP92_010276' => 'vpl', 'HPP92_011746' => 'vpl', 'HPP92_011759' => 'vpl', 'HPP92_017519' => 'vpl', 'HPP92_026288' => 'vpl', 'Hund22102' => 'sun', 'Hund22103' => 'sun', 'Lalb_Chr01g0019851' => 'lal', 'Lalb_Chr02g0142401' => 'lal', 'Lalb_Chr02g0148861' => 'lal', 'Lalb_Chr02g0150081' => 'lal', 'Lalb_Chr02g0150091' => 'lal', 'Lalb_Chr06g0168091' => 'lal', 'Lalb_Chr06g0169031' => 'lal', 'Lalb_Chr21g0311001' => 'lal', 'Lalb_Chr21g0311011' => 'lal', 'Lalb_Chr21g0312001' => 'lal', 'Lj1A60T57' => 'lonja', 'Lj1g0000165' => 'lja', 'Lj1g0008692' => 'lja', 'Lj1g0027423' => 'lja', 'Lj2A1158G44' => 'lonja', 'Lj2g0020244' => 'lja', 'Lj4C620G0' => 'lonja', 'Lj5g0021522' => 'lja', 'Lj5g0023325' => 'lja', 'Lj5g0026442' => 'lja', 'Lsat_1_v5_gn_5_186681' => 'lsa', 'Lsat_1_v5_gn_5_68360' => 'lsa', 'Lsat_1_v5_gn_8_91881' => 'lsa', 'Manes.01G201200' => 'mes', 'Manes.03G169500' => 'mes', 'Manes.05G085200' => 'mes', 'Manes.08G135600' => 'mes', 'Manes.08G135700' => 'mes', 'Manes.09G151800' => 'mes', 'Manes.09G151900' => 'mes', 'Mapoly0003s0275' => 'mpo', 'Mapoly0016s0017' => 'mpo', 'Mapoly0094s0008' => 'mpo', 'MBI04_g44868_MAGBIO' => 'mbi', 'MCO16G237' => 'mco', 'MD04G1225500' => 'mdo', 'MD04G1225700' => 'mdo', 'MD05G1204700' => 'mdo', 'MD10G1191800' => 'mdo', 'MD12G1242500' => 'mdo', 'MD12G1242900' => 'mdo', 'MD13G1205400' => 'mdo', 'MD16G1207100' => 'mdo', 'Medtr1g057690' => 'mtr', 'Medtr1g080770' => 'mtr', 'Medtr1g093150' => 'mtr', 'Medtr1g093160' => 'mtr', 'Medtr7g096210' => 'mtr', 'Medtr7g115240' => 'mtr', 'MELO3C004389.2' => 'cme', 'MELO3C004390.2' => 'cme', 'MELO3C006475.2' => 'cme', 'MELO3C008226.2' => 'cme', 'MELO3C014308.2' => 'cme', 'Migut.B01094' => 'egut', 'Migut.D00380' => 'egut', 'Migut.E00996' => 'egut', 'Migut.N02185' => 'egut', 'Migut.N02806' => 'egut', 'MSTRG.18293' => 'ama', 'MSTRG.20449' => 'ama', 'MSTRG.21509' => 'ama', 'Nitab4.5_0000187g0270' => 'nta', 'Nitab4.5_0000525g0150' => 'nta', 'Nitab4.5_0001044g0100' => 'nta', 'Nitab4.5_0001487g0040' => 'nta', 'Nitab4.5_0001592g0010' => 'nta', 'Nitab4.5_0002636g0010' => 'nta', 'Nitab4.5_0002680g0050' => 'nta', 'Nitab4.5_0006433g0020' => 'nta', 'Nitab4.5_0007553g0020' => 'nta', 'Nitab4.5_0007738g0030' => 'nta', 'Nitab4.5_0008996g0040' => 'nta', 'Nn1g02582' => 'nnu', 'Nn1g02583' => 'nnu', 'Nn3g19512' => 'nnu', 'Nn3g19513' => 'nnu', 'Nn5g27649' => 'nnu', 'Oeu002282.1' => 'oeu', 'Oeu002656.1' => 'oeu', 'Oeu010129.1' => 'oeu', 'Oeu018169.2' => 'oeu', 'Oeu025797.2' => 'oeu', 'Oeu027026.1' => 'oeu', 'Oeu031939.1' => 'oeu', 'Oeu053383.1' => 'oeu', 'Oeu058806.1' => 'oeu', 'Os03g0628900' => 'osa', 'Os03g0632800' => 'osa', 'Os03g0741700' => 'osa', 'Os03g0798200' => 'osa', 'Os12g0600200' => 'osa', 'Peaxi162Scf00282g00417' => 'pax', 'Peaxi162Scf00572g00612' => 'pax', 'Peaxi162Scf00813g00014' => 'pax', 'Peaxi162Scf01099g00031' => 'pax', 'Peaxi162Scf01311g00021' => 'pax', 'Peaxi162Scf01311g00022' => 'pax', 'Peaxi162Scf01311g00123' => 'pax', 'Peaxi162Scf01311g00124' => 'pax', 'PGR004G2600' => 'pgr', 'PGR142G3379' => 'pgr', 'PGSC0003DMG400002215' => 'stu', 'PGSC0003DMG400004205' => 'stu', 'PGSC0003DMG400005328' => 'stu', 'PGSC0003DMG400006109' => 'stu', 'PGSC0003DMG400015075' => 'stu', 'PGSC0003DMG400020061' => 'stu', 'PGSC0003DMG400036859' => 'stu', 'PGSC0003DMG400036862' => 'stu', 'PGSC0003DMG400038578' => 'stu', 'PGSC0003DMG401019457' => 'stu', 'Phvul.001G157400' => 'pvu', 'Phvul.007G177500' => 'pvu', 'Phvul.007G187800' => 'pvu', 'Phvul.007G187900' => 'pvu', 'Phvul.L001603' => 'pvu', 'Potri.002G044100' => 'ptr', 'Potri.005G054100' => 'ptr', 'Potri.005G054400' => 'ptr', 'Potri.005G054500' => 'ptr', 'Potri.005G219000' => 'ptr', 'Potri.008G161500' => 'ptr', 'Potri.010G077800' => 'ptr', 'Potri.013G042000' => 'ptr', 'Potri.013G042100' => 'ptr', 'Pp3c16_3430' => 'ppa', 'Pp3c16_6640' => 'ppa', 'Pp3c25_1770' => 'ppa', 'Pp3c5_26550' => 'ppa', 'Pp3c6_4830' => 'ppa', 'PRCOL_00003582' => 'pco', 'PRCOL_00005188' => 'pco', 'Prupe.1G028000' => 'ppe', 'Prupe.6G344100' => 'ppe', 'Prupe.6G344500' => 'ppe', 'Prupe.8G231300' => 'ppe', 'Psat0s118g0080' => 'psa', 'Psat3g060040' => 'psa', 'Psat6g057520' => 'psa', 'Psat6g115000' => 'psa', 'Psat6g145040' => 'psa', 'Psat7g054800' => 'psa', 'PSO017G4229' => 'pso', 'PSO170G5329' => 'pso', 'PSO210G3432' => 'pso', 'PSO210G4375' => 'pso', 'PSO210G6249' => 'pso', 'PSO210G6554' => 'pso', 'PSO832G1771' => 'pso', 'PSO832G3124' => 'pso', 'QL03p027228' => 'qlo', 'QL03p027238' => 'qlo', 'QL05p021031' => 'qlo', 'QL06p015285' => 'qlo', 'QL06p015289' => 'qlo', 'QL12p042817' => 'qlo', 'RcHm_v2.0_Chr3g0450701' => 'rch', 'RcHm_v2.0_Chr3g0450721' => 'rch', 'RcHm_v2.0_Chr4g0389721' => 'rch', 'RcHm_v2.0_Chr6g0289351' => 'rch', 'Rhsim01G0269000' => 'rsi', 'Rhsim04G0193300' => 'rsi', 'Rhsim05G0010900' => 'rsi', 'Rhsim05G0011400' => 'rsi', 'Rhsim07G0074100' => 'rsi', 'Rhsim07G0075000' => 'rsi', 'Sabra02G0035500' => 'sbr', 'Sabra05G0047400' => 'sbr', 'Sabra05G0168000' => 'sbr', 'Sabra08G0123300' => 'sbr', 'Sabra10G0065300' => 'sbr', 'Sabra13G0038500' => 'sbr', 'Sabra13G0038700' => 'sbr', 'SalBow6G1387' => 'sbo', 'Sc06g0003680' => 'sci', 'Sc06g0003690' => 'sci', 'Sc09g0003960' => 'sci', 'Sc19g0003820' => 'sci', 'Sc20g0000400' => 'sci', 'Sed0002816' => 'sed', 'Sed0010949' => 'sed', 'Sed0014777' => 'sed', 'Sed0019819' => 'sed', 'Sed0020567' => 'sed', 'Sed0022282' => 'sed', 'Sed0023343' => 'sed', 'Sed0025346' => 'sed', 'SEGI_20529' => 'sgi', 'SEGI_21998' => 'sgi', 'SEGI_31650' => 'sgi', 'SEGI_33401' => 'sgi', 'SEGI_35003' => 'sgi', 'SGA_v2.0_scaffold138G35269' => 'sas', 'SGA_v2.0_scaffold1G00566' => 'sas', 'SGA_v2.0_scaffold5G02970' => 'sas', 'SGA_v2.0_scaffold80G25912' => 'sas', 'SGA_v2.0_scaffold81G26062' => 'sas', 'SHI18420' => 'shi', 'SHI18422' => 'shi', 'SMO118G0230' => 'smo', 'SMO146G0324' => 'smo', 'SMO356G0364' => 'smo', 'SMO358G0746' => 'smo', 'Solyc01g020110.2' => 'sly', 'Solyc01g020113.1' => 'sly', 'Solyc01g021685.1' => 'sly', 'Solyc01g021690.1' => 'sly', 'Solyc01g097300.4' => 'sly', 'Solyc04g049190.1' => 'sly', 'Solyc06g008600.3' => 'sly', 'Solyc06g084040.3' => 'sly', 'Solyc09g065990.3' => 'sly', 'Solyc09g083300.3' => 'sly', 'Solyc09g083305.1' => 'sly', 'Solyc09g083310.3' => 'sly', 'Sopen01g015010' => 'spe', 'Sopen01g040970' => 'spe', 'Sopen04g018700' => 'spe', 'Sopen06g003370' => 'spe', 'Sopen06g035430' => 'spe', 'Sopen09g027760' => 'spe', 'Sopen09g032220' => 'spe', 'Sopen09g032230' => 'spe', 'Sp1g05500' => 'spa', 'Sp1g07420' => 'spa', 'Sp1g40510' => 'spa', 'Sp3g20730' => 'spa', 'Sp3g20740' => 'spa', 'Sp4g13130' => 'spa', 'Sp7g12630' => 'spa', 'TAR362G0632' => 'tar', 'TAR365G0140' => 'tar', 'TAR365G0807' => 'tar', 'TAR633G1901' => 'tar', 'TAR633G2811' => 'tar', 'TAR636G2667' => 'tar', 'THA.LOC104800803' => 'tha', 'THA.LOC104805822' => 'tha', 'THA.LOC104822249' => 'tha', 'THA.LOC104823751' => 'tha', 'THA.LOC104826255' => 'tha', 'Thecc.01G266500' => 'tca', 'Thecc.04G245200' => 'tca', 'Thecc.05G281200' => 'tca', 'Thecc.05G281300' => 'tca', 'Thecc.09G079900' => 'tca', 'Thhalv10007754m.g' => 'esa', 'Thhalv10009095m.g' => 'esa', 'Thhalv10016711m.g' => 'esa', 'Thhalv10022423m.g' => 'esa', 'TPR.G12907' => 'tpr', 'TPR.G2872' => 'tpr', 'TPR.G5719' => 'tpr', 'TPR.G7010' => 'tpr', 'TPR.G9390' => 'tpr', 'TWI12G0612' => 'twi', 'TWI12G1130' => 'twi', 'TWI12G1297' => 'twi', 'TWI18G0885' => 'twi', 'TWI53G2109' => 'twi', 'TWI75G1352' => 'twi', 'unitig_22.g5465' => 'ugi', 'unitig_26.g10143' => 'ugi', 'unitig_52.g17389' => 'ugi', 'unitig_699.g19313' => 'ugi', 'unitig_85.g27263' => 'ugi', 'vmacro13808' => 'vma', 'vmacro13825' => 'vma', 'vmacro14864' => 'vma', 'vmacro14865' => 'vma', 'VMungo0720G0290' => 'vmu', 'VMungo0720G0790' => 'vmu', 'VMungo0720G3031' => 'vmu', 'VMungo0720G3104' => 'vmu', 'VMungo1383G3587' => 'vmu', 'Zm00001eb031130' => 'zma', 'Zm00001eb051090' => 'zma', 'Zm00001eb051110' => 'zma', 'Zm00001eb056800' => 'zma', 'Zm00001eb060990' => 'zma', 'Zm00001eb135470' => 'zma', 'Zm00001eb215150' => 'zma', 'Zm00001eb218870' => 'zma', 'Zm00001eb301580' => 'zma' ) $gf_id = 'HOM05D001069' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001069' ) $data_identifier = 'HOM05D001069' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 1, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 8, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 8, 'sun' => (int) 2, 'lal' => (int) 10, 'lonja' => (int) 3, 'lja' => (int) 7, 'lsa' => (int) 3, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 9, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 2, 'stu' => (int) 10, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 5, 'sed' => (int) 8, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 4, 'sly' => (int) 12, 'spe' => (int) 8, 'spa' => (int) 7, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb301580' $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